So wouldn't it be fair to say if locking the center diff lock makes the clunk go away that the problem must be within the diffs or transfer case?Yeah, disappears with the centre diff locked...
Given your build as an example, there is no amount of fixing bushings, mounts, etc. that can fix that problem.
Whereas with some people they report if they lock the center diff the clunk doesn't go away. To me that translates to an external problem like bushings, cvs,drive shaft, all the other usual suspects.
I think the first test for people with the clunk should be to lock the center diff and if the clunk goes away clearly it's not a problem of worn front diff bushings or any of the other issues people chase to try and fix it.